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mmu_circLrpprc_468
Basic information of circular RNA
PanCircBase ID:
mmu_circLrpprc_468
mm39_Chr. Position ID:
chr17|85024054|85034100|-
Gene name:
Lrpprc
Transcript:
ENSMUST00000112308.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
31,30,29,28
Exon/intron offsets:
0,6070,9676,9903
Genomic length:
10046
Exon/intron sizes in nt:
89,12,71,09,143
Flanking exon/introns:
chr17:85020322-85024054|chr17:85034100-85038572
Splice length:
468
Other database IDs:
circAtlas: mmu-Lrpprc_0007
circBase: hsa_circ_0054338, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_41395
Human Ortholog IDs:
Mature spliced Sequence:
AAATAAGCAGTGACTGGCAAAGAGCGGATGCTGCGTGGACCAAAATGCAAGAAGAGAACATTATCCCTCGAGAGCGGACACTGCGGCTCTTAGCCGAGATCTTGAAAACCAGCAACCAGGAAGTTCCTTTCGACGTTCCGGAGTTGTGGTTTGGAGATGACAGACCTTCCCTGAGTCCATCCTCACGCTCAGCAGGAGAGGACGTTACTGAGAAGACGTTGTTGTCTAACTGCAAACTAAAGAAGAGTAAAGATGCATATAATATCTTCCTTAAAGCCGAAAAGCAAAACGTTGTATTTAGCAGTGAAACTTATAGCACCTTGATAGGCTTGCTGCTGAGTAAGGACGACTTCACCCAAGCAATGCACGTGAAGGATTTCGCTGAGACCCACATCAAGGGCTTCACACTGAACGATGCTGCCAACAGCCTCCTCATCATAAGGCAAGTTAGGCGGGATTATTTGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATTTCGCTGAGACCCACA
60.04
TTGCATTTTGGTCCACGCAG
59.97
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATTTCGCTGAGACCCACA
60.04
CTTGCATTTTGGTCCACGCA
59.97
146
PCR template sequence:
GTGAAGGATTTCGCTGAGACCCACATCAAGGGCTTCACACTGAACGATGCTGCCAACAGCCTCCTCATCATAAGGCAAGTTAGGCGGGATTATTTGAAAGAAATAAGCAGTGACTGGCAAAGAGCGGATGCTGCGTGGACCAAAATGCAAGAAGAGAACATTATCCCTCGAGAGCGGACACTGCGGCTCTTAGCCGAGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-26a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATTATTTGAAAGAAATAAGCAGTGA
siRNA sets
TCACTGCTTATTTCTTTCA, TTATTTCTTTCAAATAATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRPPRC_468_ORF_1
1.0113
0.282741117
0.985246518
891
ORF sequence:
ATGCAAGAAGAGAACATTATCCCTCGAGAGCGGACACTGCGGCTCTTAGCCGAGATCTTGAAAACCAGCAACCAGGAAGTTCCTTTCGACGTTCCGGAGTTGTGGTTTGGAGATGACAGACCTTCCCTGAGTCCATCCTCACGCTCAGCAGGAGAGGACGTTACTGAGAAGACGTTGTTGTCTAACTGCAAACTAAAGAAGAGTAAAGATGCATATAATATCTTCCTTAAAGCCGAAAAGCAAAACGTTGTATTTAGCAGTGAAACTTATAGCACCTTGATAGGCTTGCTGCTGAGTAAGGACGACTTCACCCAAGCAATGCACGTGAAGGATTTCGCTGAGACCCACATCAAGGGCTTCACACTGAACGATGCTGCCAACAGCCTCCTCATCATAAGGCAAGTTAGGCGGGATTATTTGAAAGAAATAAGCAGTGACTGGCAAAGAGCGGATGCTGCGTGGACCAAAATGCAAGAAGAGAACATTATCCCTCGAGAGCGGACACTGCGGCTCTTAGCCGAGATCTTGAAAACCAGCAACCAGGAAGTTCCTTTCGACGTTCCGGAGTTGTGGTTTGGAGATGACAGACCTTCCCTGAGTCCATCCTCACGCTCAGCAGGAGAGGACGTTACTGAGAAGACGTTGTTGTCTAACTGCAAACTAAAGAAGAGTAAAGATGCATATAATATCTTCCTTAAAGCCGAAAAGCAAAACGTTGTATTTAGCAGTGAAACTTATAGCACCTTGATAGGCTTGCTGCTGAGTAAGGACGACTTCACCCAAGCAATGCACGTGAAGGATTTCGCTGAGACCCACATCAAGGGCTTCACACTGAACGATGCTGCCAACAGCCTCCTCATCATAAGGCAAGTTAGGCGGGATTATTTGAAA
Peptide sequence:
MQEENIIPRERTLRLLAEILKTSNQEVPFDVPELWFGDDRPSLSPSSRSAGEDVTEKTLLSNCKLKKSKDAYNIFLKAEKQNVVFSSETYSTLIGLLLSKDDFTQAMHVKDFAETHIKGFTLNDAANSLLIIRQVRRDYLKEISSDWQRADAAWTKMQEENIIPRERTLRLLAEILKTSNQEVPFDVPELWFGDDRPSLSPSSRSAGEDVTEKTLLSNCKLKKSKDAYNIFLKAEKQNVVFSSETYSTLIGLLLSKDDFTQAMHVKDFAETHIKGFTLNDAANSLLIIRQVRRDYLK
IRESfinder result
IRESfinder score
0.396378128
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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